Skip to content
Open
Show file tree
Hide file tree
Changes from all commits
Commits
File filter

Filter by extension

Filter by extension

Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
30 changes: 30 additions & 0 deletions k-mers_counter.md
Original file line number Diff line number Diff line change
@@ -0,0 +1,30 @@
# K-mers Counter

```python
def k_mer_counter(dna_seqs, k):
k_mers = {}
for heading in dna_seqs.keys():
sequence = dna_seqs[heading]
stop = k
for start in range(len(sequence)):
if stop <= len(sequence):
k_mer = sequence[start:stop]
stop += 1
if k_mer not in k_mers.keys():
k_mers[k_mer] = 1
else:
k_mers[k_mer] += 1

original_count = 0
repetitive_count = 0
for count in k_mers.values():
if count == 1:
original_count += 1
else:
repetitive_count += 1

return f"Sequences contain {original_count} original {k_input}-mer(s) and {repetitive_count} repetitive {k_input}-mer(s)"

dna_seqs = {1:"atatacta", 2:"tgcacaca"}
k_mer_counter(dna_seqs, 8)
```
Loading